☰ Navigation Tabs
Endo-fucoidan hydrolase P5AFcnA from glycoside hydrolase family 107
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291.15 Sodium malonate
pH 6-7
Crystal Properties Matthews coefficient Solvent content 2.85 61.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.455 α = 90 b = 97.455 β = 90 c = 96.684 γ = 120
Symmetry Space Group P 31 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 R 200K-A 2018-08-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.55 40 100 0.068 0.071 0.022 13.2 7.8 77250
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.55 1.58 100 0.565 0.629 0.273 0.837 5.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.55 38.71 72719 3795 99.05 0.1601 0.159 0.1612 0.1805 0.1836 RANDOM 15.909
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -0.1 -0.05 -0.1 0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.351 r_dihedral_angle_4_deg 16.699 r_dihedral_angle_3_deg 11.396 r_dihedral_angle_1_deg 6.333 r_angle_refined_deg 1.785 r_angle_other_deg 1.133 r_chiral_restr 0.098 r_bond_refined_d 0.015 r_gen_planes_refined 0.011 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.351 r_dihedral_angle_4_deg 16.699 r_dihedral_angle_3_deg 11.396 r_dihedral_angle_1_deg 6.333 r_angle_refined_deg 1.785 r_angle_other_deg 1.133 r_chiral_restr 0.098 r_bond_refined_d 0.015 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2883 Nucleic Acid Atoms Solvent Atoms 524 Heterogen Atoms 8
Software Software Software Name Purpose HKL-2000 data reduction HKL-2000 data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing